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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:PPP2R5C-CHD2 (FusionGDB2 ID:68073)

Fusion Gene Summary for PPP2R5C-CHD2

check button Fusion gene summary
Fusion gene informationFusion gene name: PPP2R5C-CHD2
Fusion gene ID: 68073
HgeneTgene
Gene symbol

PPP2R5C

CHD2

Gene ID

5527

1826

Gene nameprotein phosphatase 2 regulatory subunit B'gammaDS cell adhesion molecule
SynonymsB56G|B56gamma|PR61GCHD2|CHD2-42|CHD2-52
Cytomap

14q32.31

21q22.2

Type of geneprotein-codingprotein-coding
Descriptionserine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoformB' alpha regulatory subunitPP2A B subunit isoform B'-gammaPP2A B subunit isoform B56-gammaPP2A B subunit isoform PR61-gammaPP2A B subunit isoform R5-gammaprotein phosphatDown syndrome cell adhesion molecule
Modification date2020031320200313
UniProtAcc.

O14647

Ensembl transtripts involved in fusion geneENST00000556068, ENST00000328724, 
ENST00000422945, ENST00000554442, 
ENST00000556260, ENST00000334743, 
ENST00000350249, ENST00000445439, 
ENST00000556946, ENST00000557095, 
ENST00000557714, 		ENST00000394196, 
ENST00000420239, ENST00000536619, 
ENST00000557381, ENST00000554122, 
Fusion gene scores* DoF score18 X 11 X 8=158422 X 16 X 8=2816
# samples 1921
** MAII scorelog2(19/1584*10)=-3.05950101174866
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(21/2816*10)=-3.74518610097117
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PPP2R5C [Title/Abstract] AND CHD2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointPPP2R5C(102229307)-CHD2(93467550), # samples:1
Anticipated loss of major functional domain due to fusion event.PPP2R5C-CHD2 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
PPP2R5C-CHD2 seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
PPP2R5C-CHD2 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
PPP2R5C-CHD2 seems lost the major protein functional domain in Tgene partner, which is a epigenetic factor due to the frame-shifted ORF.
PPP2R5C-CHD2 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgenePPP2R5C

GO:0008285

negative regulation of cell proliferation

17245430

TgeneCHD2

GO:0042327

positive regulation of phosphorylation

19196994

TgeneCHD2

GO:0048842

positive regulation of axon extension involved in axon guidance

18585357


check buttonFusion gene breakpoints across PPP2R5C (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across CHD2 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4Non-Cancer2397NPPP2R5Cchr14

102229307

+CHD2chr15

93467550

+


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Fusion Gene ORF analysis for PPP2R5C-CHD2

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
3UTR-3CDSENST00000556068ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
3UTR-3CDSENST00000556068ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
3UTR-3CDSENST00000556068ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
3UTR-3CDSENST00000556068ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
3UTR-intronENST00000556068ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
5CDS-intronENST00000328724ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
5CDS-intronENST00000422945ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
5CDS-intronENST00000554442ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
5CDS-intronENST00000556260ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000328724ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000328724ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000328724ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000328724ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000422945ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000422945ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000422945ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000422945ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000554442ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000554442ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000554442ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000554442ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000556260ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000556260ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000556260ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
Frame-shiftENST00000556260ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000334743ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000334743ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000334743ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000334743ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000350249ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000350249ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000350249ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000350249ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000445439ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000445439ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000445439ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000445439ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000556946ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000556946ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000556946ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000556946ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557095ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557095ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557095ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557095ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557714ENST00000394196PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557714ENST00000420239PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557714ENST00000536619PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-3CDSENST00000557714ENST00000557381PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000334743ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000350249ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000445439ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000556946ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000557095ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+
intron-intronENST00000557714ENST00000554122PPP2R5Cchr14

102229307

+CHD2chr15

93467550

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for PPP2R5C-CHD2


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
PPP2R5Cchr14102229307+CHD2chr1593467550+0.0007291720.99927086
PPP2R5Cchr14102229307+CHD2chr1593467550+0.0007291720.99927086

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for PPP2R5C-CHD2


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:102229307/:93467550)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.CHD2

O14647

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: DNA-binding helicase that specifically binds to the promoter of target genes, leading to chromatin remodeling, possibly by promoting deposition of histone H3.3. Involved in myogenesis via interaction with MYOD1: binds to myogenic gene regulatory sequences and mediates incorporation of histone H3.3 prior to the onset of myogenic gene expression, promoting their expression (By similarity). {ECO:0000250}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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Fusion Gene Sequence for PPP2R5C-CHD2


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for PPP2R5C-CHD2


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for PPP2R5C-CHD2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for PPP2R5C-CHD2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource